BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 038179
(221 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3UXQ|I Chain I, The Structure Of Thermorubin In Complex With The 70s
Ribosome From Thermus Thermophilus. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3UXR|I Chain I, The Structure Of Thermorubin In Complex With The 70s
Ribosome From Thermus Thermophilus. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes
Length = 148
Score = 53.9 bits (128), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 48/169 (28%), Positives = 80/169 (47%), Gaps = 38/169 (22%)
Query: 53 VDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIRKQ-RRICQPVEEEKVK 107
++ LG G+ V V PGY RN+L+P+ LAV N++ IR Q +R+ +
Sbjct: 9 LENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE-------- 60
Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAE 167
RK+E +E LEN L + +R+ +K + VT +++
Sbjct: 61 --RKAEAERLKEI------LENLTLTI-------PVRAGETK-----IYGSVTAKDIAEA 100
Query: 168 VARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNV 216
++RQ ++IEP+ L L P+ GEY + + P PE +Q ++V
Sbjct: 101 LSRQHGVTIEPKRLALEKPIKELGEYVLTYK-----PHPEVPIQLKVSV 144
>pdb|1VSA|G Chain G, Crystal Structure Of A 70s Ribosome-Trna Complex Reveals
Functional Interactions And Rearrangements. This File,
1vsa, Contains The 50s Ribosome Subunit. 30s Ribosome
Subunit Is In The File 2ow8
pdb|1VSP|G Chain G, Interactions And Dynamics Of The Shine-Dalgarno Helix In
The 70s Ribosome. This File, 1vsp, Contains The 50s
Ribosome Subunit. 30s Ribosome Subunit Is In The File
2qnh
pdb|3D5B|I Chain I, Structural Basis For Translation Termination On The 70s
Ribosome. This File Contains The 50s Subunit Of One 70s
Ribosome. The Entire Crystal Structure Contains Two 70s
Ribosomes As Described In Remark 400.
pdb|3D5D|I Chain I, Structural Basis For Translation Termination On The 70s
Ribosome. This File Contains The 50s Subunit Of The
Second 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes As Described In Remark 400.
pdb|3F1F|I Chain I, Crystal Structure Of A Translation Termination Complex
Formed With Release Factor Rf2. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes As Described In
Remark 400.
pdb|3F1H|I Chain I, Crystal Structure Of A Translation Termination Complex
Formed With Release Factor Rf2. This File Contains The
50s Subunit Of The Second 70s Ribosome. The Entire
Crystal Structure Contains Two 70s Ribosomes As
Described In Remark 400.
pdb|2WH4|I Chain I, Insights Into Translational Termination From The Structure
Of Rf2 Bound To The Ribosome
pdb|3MRZ|H Chain H, Recognition Of The Amber Stop Codon By Release Factor Rf1.
This Entry 3mrz Contains 50s Ribosomal Subunit. The 30s
Ribosomal Subunit Can Be Found In Pdb Entry 3ms0.
Molecule A In The Same Asymmetric Unit Is Deposited As
3mr8 (50s) And 3ms1 (30s).
pdb|3MS1|H Chain H, Recognition Of The Amber Stop Codon By Release Factor Rf1.
This Entry 3ms1 Contains 50s Ribosomal Subunit. The 30s
Ribosomal Subunit Can Be Found In Pdb Entry 3mr8.
Molecule B In The Same Asymmetric Unit Is Deposited As
3mrz (50s) And 3ms0 (30s)
Length = 148
Score = 53.5 bits (127), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 48/169 (28%), Positives = 80/169 (47%), Gaps = 38/169 (22%)
Query: 53 VDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIRKQ-RRICQPVEEEKVK 107
++ LG G+ V V PGY RN+L+P+ LAV N++ IR Q +R+ +
Sbjct: 9 LENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE-------- 60
Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAE 167
RK+E +E LEN L + +R+ +K + VT +++
Sbjct: 61 --RKAEAERLKEI------LENLTLTI-------PVRAGETK-----IYGSVTAKDIAEA 100
Query: 168 VARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNV 216
++RQ I+I+P+ L L P+ GEY + + P PE +Q ++V
Sbjct: 101 LSRQHGITIDPKRLALEKPIKELGEYVLTYK-----PHPEVPIQLKVSV 144
>pdb|3PYO|H Chain H, Crystal Structure Of A Complex Containing Domain 3 From
The Psiv Igr Ires Rna Bound To The 70s Ribosome. This
File Contains The 50s Subunit Of The First 70s Ribosome.
pdb|3PYR|H Chain H, Crystal Structure Of A Complex Containing Domain 3 From
The Psiv Igr Ires Rna Bound To The 70s Ribosome. This
File Contains The 50s Subunit Of The Second 70s
Ribosome.
pdb|3PYT|H Chain H, Crystal Structure Of A Complex Containing Domain 3 Of Crpv
Igr Ires Rna Bound To The 70s Ribosome. This File
Contains The 50s Subunit Of The First 70s Ribosome.
pdb|3PYV|H Chain H, Crystal Structure Of A Complex Containing Domain 3 Of Crpv
Igr Ires Rna Bound To The 70s Ribosome. This File
Contains The 50s Subunit Of The Second 70s Ribosome
Length = 145
Score = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 48/169 (28%), Positives = 80/169 (47%), Gaps = 38/169 (22%)
Query: 53 VDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIRKQ-RRICQPVEEEKVK 107
++ LG G+ V V PGY RN+L+P+ LAV N++ IR Q +R+ +
Sbjct: 9 LENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE-------- 60
Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAE 167
RK+E +E LEN L + +R+ +K + VT +++
Sbjct: 61 --RKAEAERLKEI------LENLTLTI-------PVRAGETK-----IYGSVTAKDIAEA 100
Query: 168 VARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNV 216
++RQ I+I+P+ L L P+ GEY + + P PE +Q ++V
Sbjct: 101 LSRQHGITIDPKRLALEKPIKELGEYVLTYK-----PHPEVPIQLKVSV 144
>pdb|3FIN|I Chain I, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas
And Ef- Tu.Gdp.Kirromycin Ternary Complex, Fitted To A
6.4 A Cryo-Em Map. This File Contains The 50s Subunit
Length = 146
Score = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 48/171 (28%), Positives = 81/171 (47%), Gaps = 38/171 (22%)
Query: 53 VDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIRKQ-RRICQPVEEEKVK 107
++ LG G+ V V PGY RN+L+P+ LAV N++ IR Q +R+ +
Sbjct: 9 LENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE-------- 60
Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAE 167
RK+E +E LEN L + +R+ +K + VT +++
Sbjct: 61 --RKAEAERLKEI------LENLTLTI-------PVRAGETK-----IYGSVTAKDIAEA 100
Query: 168 VARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKV 218
++RQ ++I+P+ L L P+ GEY + + P PE +Q ++V V
Sbjct: 101 LSRQHGVTIDPKRLALEKPIKELGEYVLTYK-----PHPEVPIQLKVSVVV 146
>pdb|2V47|I Chain I, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And
Trna-Fmet (Part 2 Of 4). This File Contains The 50s
Subunit For Molecule 1.
pdb|2V49|I Chain I, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And
Trna-Fmet (Part 4 Of 4). This File Contains The 50s
Subunit Of Molecule 2.
pdb|2WDI|I Chain I, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A-Site Trna,
Deacylated P-Site Trna, And E-Site Trna. This File
Contains The 50s Subunit For Molecule I.
pdb|2WDJ|I Chain I, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A-Site Trna,
Deacylated P-Site Trna, And E-Site Trna. This File
Contains The 50s Subunit For Molecule Ii.
pdb|2WDL|I Chain I, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A- And P-Site
Trnas, And E-Site Trna. This File Contains The 50s
Subunit For Molecule I.
pdb|2WDN|I Chain I, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A- And P-Site
Trnas, And E-Site Trna. This File Contains The 50s
Subunit For Molecule Ii.
pdb|2WH2|I Chain I, Insights Into Translational Termination From The Structure
Of Rf2 Bound To The Ribosome
pdb|3HUX|I Chain I, Structure Of Ef-P Bound To The 70s Ribosome; This File
Contains The 50s Subunit For Molecule I.
pdb|3HUZ|I Chain I, Structure Of Ef-P Bound To The 70s Ribosome; This File
Contains The 50s Subunit For Molecule Ii.
pdb|3KIR|I Chain I, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Precleavage State; Part 2 Of 4)
pdb|3KIT|I Chain I, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Precleavage State; Part 4 Of 4)
pdb|3KIW|I Chain I, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Postcleavage State; Part 2 Of 4)
pdb|3KIY|I Chain I, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Postcleavage State; Part 4 Of 4)
pdb|3KNI|I Chain I, The Structures Of Viomycin Bound To The 70s Ribosome. This
File Contains The 50s Subunit For Molecule I
pdb|3KNK|I Chain I, The Structures Of Viomycin Bound To The 70s Ribosome. This
File Contains The 50s Subunit For Molecule Ii.
pdb|3KNM|I Chain I, The Structures Of Capreomycin Bound To The 70s Ribosome.
Thi Contains The 50s Subunit For Molecule I.
pdb|3KNO|I Chain I, The Structures Of Capreomycin Bound To The 70s Ribosome.
Thi Contains The 50s Subunit For Molecule Ii
pdb|3I8F|K Chain K, Elongation Complex Of The 70s Ribosome With Three Trnas
And Entry 3i8f Contains 50s Ribosomal Subunit. The 30s
Ribosoma Can Be Found In Pdb Entry 3i8g. Molecule B In
The Same Asym Unit Is Deposited As 3i8g (30s) And 3i8f
(50s).
pdb|3I8I|K Chain K, Elongation Complex Of The 70s Ribosome With Three Trnas
And Entry 3i8i Contains 50s Ribosomal Subnit. The 30s
Ribosomal Can Be Found In Pdb Entry 3i8h. Molecule A In
The Same Asym Unit Is Deposited As 3i8f (50s) And 3i8g
(30s).
pdb|3I9C|K Chain K, Initiation Complex Of 70s Ribosome With Two Trnas And
Mrna. 3i9c Contains 50s Ribosomal Subunit Of Molecule B.
The 30s Subunit Can Be Found In Pdb Entry 3i9b. Molecule
A In The S Asymmetric Unit Is Deposited As 3i9d (30s)
And 3i9e (50s)
pdb|3I9E|K Chain K, Initiation Complex Of 70s Ribosome With Two Trnas And
Mrna. 3i9e Contains 50s Ribosomal Subunit Of Molecule A.
The 30s Subunit Can Be Found In Pdb Entry 3i9d. Molecule
B In The S Asymmetric Unit Is Deposited As 3i9b (30s)
And 3i9c (50s)
pdb|2X9S|I Chain I, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|2X9U|I Chain I, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|2XG0|I Chain I, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 2 Of 4)
pdb|2XG2|I Chain I, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 4 Of 4)
pdb|3OH5|I Chain I, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Chloramphenicol. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OH7|I Chain I, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Chloramphenicol. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OHJ|I Chain I, Structure Of The Thermus Thermophilus Ribosome Complexed
With Erythromycin. This File Contains The 50s Subunit Of
One 70s Ribosome. The Entire Crystal Structure Contains
Two 70s Ribosomes.
pdb|3OHK|I Chain I, Structure Of The Thermus Thermophilus Ribosome Complexed
With Erythromycin. This File Contains The 50s Subunit Of
One 70s Ribosome. The Entire Crystal Structure Contains
Two 70s Ribosomes.
pdb|3OHZ|I Chain I, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Azithromycin. This File Contains The 50s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI1|I Chain I, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Azithromycin. This File Contains The 50s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI3|I Chain I, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Telithromycin. This File Contains The 50s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI5|I Chain I, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Telithromycin. This File Contains The 50s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3UYE|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex
pdb|3UYG|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex
pdb|3UZ1|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex With Paromomycin
pdb|3UZ2|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex With Paromomycin.
pdb|3UZ8|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Tyr Complex.
pdb|3UZ9|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Tyr Complex.
pdb|3UZF|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Tyr Complex
pdb|3UZH|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Tyr Complex.
pdb|3UZK|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Tyr Complex With Paromomycin
pdb|3UZN|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Near-cognate
Trna-tyr Complex With Paromomycin
pdb|4DHA|I Chain I, Crystal Structure Of Yaej Bound To The 70s Ribosome
pdb|4DHC|I Chain I, Crystal Structure Of Yaej Bound To The 70s Ribosome
pdb|3V23|I Chain I, Crystal Structure Of Rmf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 50s Subunit Of
The 1st Ribosome In The Asu
pdb|3V25|I Chain I, Crystal Structure Of Rmf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 50s Subunit Of
The 2nd Ribosome In The Asu
pdb|3V27|I Chain I, Crystal Structure Of Hpf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 50s Subunit Of
The 1st Ribosome In The Asu
pdb|3V29|I Chain I, Crystal Structure Of Hpf Bound To The 70s Ribosome. This
Entry Contains The 50s Subunit Of The 2nd Molecule In
The Asu.
pdb|3V2D|I Chain I, Crystal Structure Of Yfia Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 50s Subunit Of
The 1st Ribosome In The Asu
pdb|3V2F|I Chain I, Crystal Structure Of Yfia Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 50s Subunit Of
The 2nd Ribosome In The Asu
pdb|2J01|I Chain I, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 2 Of 4).
This File Contains The 50s Subunit From Molecule I.
pdb|2J03|I Chain I, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 4 Of 4).
This File Contains The 50s Subunit From Molecule Ii.
pdb|4G5L|K Chain K, Crystal Structure Of The 70s Ribosome With Tetracycline.
This Entry Contains The 50s Subunit Of Molecule A.
pdb|4G5N|K Chain K, Crystal Structure Of The 70s Ribosome With Tetracycline.
This Entry Contains The 50s Subunit Of Molecule B.
pdb|4G5U|K Chain K, Crystal Structure Of The 70s Ribosome With Tigecycline.
This Entry Contains The 50s Subunit Of Molecule A.
pdb|4G5W|K Chain K, Crystal Structure Of The 70s Ribosome With Tigecycline.
This Entry Contains The 50s Subunit Of Molecule B
Length = 148
Score = 52.8 bits (125), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 47/169 (27%), Positives = 80/169 (47%), Gaps = 38/169 (22%)
Query: 53 VDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIRKQ-RRICQPVEEEKVK 107
++ LG G+ V V PGY RN+L+P+ LAV N++ IR Q +R+ +
Sbjct: 9 LENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE-------- 60
Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAE 167
RK+E +E LEN L + +R+ +K + VT +++
Sbjct: 61 --RKAEAERLKEI------LENLTLTI-------PVRAGETK-----IYGSVTAKDIAEA 100
Query: 168 VARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNV 216
++RQ ++I+P+ L L P+ GEY + + P PE +Q ++V
Sbjct: 101 LSRQHGVTIDPKRLALEKPIKELGEYVLTYK-----PHPEVPIQLKVSV 144
>pdb|3TVE|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Leu Complex
pdb|3TVH|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Leu Complex
Length = 146
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 47/169 (27%), Positives = 80/169 (47%), Gaps = 38/169 (22%)
Query: 53 VDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIRKQ-RRICQPVEEEKVK 107
++ LG G+ V V PGY RN+L+P+ LAV N++ IR Q +R+ +
Sbjct: 9 LENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE-------- 60
Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAE 167
RK+E +E LEN L + +R+ +K + VT +++
Sbjct: 61 --RKAEAERLKEI------LENLTLTI-------PVRAGETK-----IYGSVTAKDIAEA 100
Query: 168 VARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNV 216
++RQ ++I+P+ L L P+ GEY + + P PE +Q ++V
Sbjct: 101 LSRQHGVTIDPKRLALEKPIKELGEYVLTYK-----PHPEVPIQLKVSV 144
>pdb|2HGJ|K Chain K, Crystal Structure Of The 70s Thermus Thermophilus Ribosome
Showing How The 16s 3'-End Mimicks Mrna E And P Codons.
This Entry 2hgj Contains 50s Ribosomal Subunit. The 30s
Ribosomal Subunit Can Be Found In Pdb Entry 2hgi.
pdb|2HGQ|K Chain K, Crystal Structure Of The 70s Thermus Thermophilus Ribosome
With Translocated And Rotated Shine-Dalgarno Duplex.
This Entry 2hgq Contains 50s Ribosomal Subunit. The 30s
Ribosomal Subunit Can Be Found In Pdb Entry 2hgp.
pdb|2HGU|K Chain K, 70s T.Th. Ribosome Functional Complex With Mrna And E- And
P-Site Trnas At 4.5a. This Entry 2hgu Contains 50s
Ribosomal Subunit. The 30s Ribosomal Subunit Can Be
Found In Pdb Entry 2hgr
Length = 148
Score = 52.0 bits (123), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 47/169 (27%), Positives = 81/169 (47%), Gaps = 38/169 (22%)
Query: 53 VDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIRKQ-RRICQPVEEEKVK 107
++ LG G+ V V PGY RN+L+P+ LAV N++ IR Q +R+ +
Sbjct: 9 LENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE-------- 60
Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAE 167
RK+ E E+ + LEN L + +R+ +K + VT +++
Sbjct: 61 --RKA------EAERLKKILENLTLTI-------PVRAGETK-----IYGSVTAKDIAEA 100
Query: 168 VARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNV 216
++RQ ++I+P+ L L P+ GEY + + P PE +Q ++V
Sbjct: 101 LSRQHGVTIDPKRLALEKPIKELGEYVLTYK-----PHPEVPIQLKVSV 144
>pdb|1NKW|F Chain F, Crystal Structure Of The Large Ribosomal Subunit From
Deinococcus Radiodurans
pdb|1NWX|F Chain F, Complex Of The Large Ribosomal Subunit From Deinococcus
Radiodurans With Abt-773
pdb|1NWY|F Chain F, Complex Of The Large Ribosomal Subunit From Deinococcus
Radiodurans With Azithromycin
pdb|1SM1|F Chain F, Complex Of The Large Ribosomal Subunit From Deinococcus
Radiodurans With Quinupristin And Dalfopristin
pdb|1XBP|F Chain F, Inhibition Of Peptide Bond Formation By Pleuromutilins:
The Structure Of The 50s Ribosomal Subunit From
Deinococcus Radiodurans In Complex With Tiamulin
Length = 146
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 39/152 (25%), Positives = 62/152 (40%), Gaps = 24/152 (15%)
Query: 55 KLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKSED 114
+LGK GE V V GY RN L+P+ LAV R E +++ I K +
Sbjct: 10 RLGKTGEVVSVKDGYARNWLIPQGLAVSAT-----------RTNMKTLEAQLRSIEKRQA 58
Query: 115 NMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSI 174
E A RL + +L RA + ++ VT ++ VA QL
Sbjct: 59 QEKAVAEDLASRLNGVAV---------ELSVRAGEG---KIYGAVTHQD-VANSLDQLGF 105
Query: 175 SIEPENLHLPSPLSAFGEYEVPMRLPKAIPLP 206
++ + +P + GEY++ R + +P
Sbjct: 106 DVDRRKIDMPKTVKEVGEYDIAYRAHPEVTIP 137
>pdb|1PNU|F Chain F, Crystal Structure Of A Streptomycin Dependent Ribosome
From Escherichia Coli, 50s Subunit Of 70s Ribosome.
This File, 1pnu, Contains Only Molecules Of The 50s
Ribosomal Subunit. The 30s Subunit, Mrna, P-Site Trna,
And A-Site Trna Are In The Pdb File 1pns.
pdb|1PNY|F Chain F, Crystal Structure Of The Wild Type Ribosome From E.
Coli, 50s Subunit Of 70s Ribosome. This File, 1pny,
Contains Only Molecules Of The 50s Ribosomal Subunit.
The 30s Subunit Is In The Pdb File 1pnx.
pdb|1VOR|I Chain I, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOU|I Chain I, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOW|I Chain I, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOY|I Chain I, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VP0|I Chain I, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400
Length = 52
Score = 35.4 bits (80), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 16/28 (57%), Positives = 19/28 (67%)
Query: 54 DKLGKAGETVKVAPGYFRNHLMPKLLAV 81
+LGK GE V V GY RN L+P+ LAV
Sbjct: 9 SRLGKTGEVVSVKDGYARNWLIPQGLAV 36
>pdb|1P85|F Chain F, Real Space Refined Coordinates Of The 50s Subunit Fitted
Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp
State Of E. Coli 70s Ribosome
pdb|1P86|F Chain F, Real Space Refined Coordinates Of The 50s Subunit Fitted
Into The Low Resolution Cryo-Em Map Of The
Initiation-Like State Of E. Coli 70s Ribosome
pdb|2AW4|H Chain H, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli At 3.5 A Resolution. This File
Contains The 50s Subunit Of One 70s Ribosome. The
Entire Crystal Structure Contains Two 70s Ribosomes And
Is Described In Remark 400.
pdb|2AWB|H Chain H, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli At 3.5 A Resolution. This File
Contains The 50s Subunit Of The Second 70s Ribosome.
The Entire Crystal Structure Contains Two 70s Ribosomes
And Is Described In Remark 400.
pdb|1VS6|H Chain H, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described
In Remark 400.
pdb|1VS8|H Chain H, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described
In Remark 400.
pdb|2GYA|F Chain F, Structure Of The 50s Subunit Of A Pre-Translocational E.
Coli Ribosome Obtained By Fitting Atomic Models For Rna
And Protein Components Into Cryo-Em Map Emd-1056
pdb|2GYC|F Chain F, Structure Of The 50s Subunit Of A Secm-Stalled E. Coli
Ribosome Complex Obtained By Fitting Atomic Models For
Rna And Protein Components Into Cryo-Em Map Emd-1143
pdb|2I2T|H Chain H, Crystal Structure Of Ribosome With Messenger Rna And The
Anticodon Stem-Loop Of P-Site Trna. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described
In Remark 400.
pdb|2I2V|H Chain H, Crystal Structure Of Ribosome With Messenger Rna And The
Anticodon Stem-Loop Of P-Site Trna. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described
In Remark 400.
pdb|2J28|H Chain H, Model Of E. Coli Srp Bound To 70s Rncs
pdb|2QOV|H Chain H, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin. This
File Contains The 50s Subunit Of The First 70s
Ribosome. The Entire Crystal Structure Contains Two 70s
Ribosomes.
pdb|2QOX|H Chain H, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin. This
File Contains The 50s Subunit Of The Second 70s
Ribosome. The Entire Crystal Structure Contains Two 70s
Ribosomes.
pdb|2QOZ|H Chain H, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin And
Neomycin. This File Contains The 50s Subunit Of The
First 70s Ribosome, With Neomycin Bound. The Entire
Crystal Structure Contains Two 70s Ribosomes.
pdb|2QP1|H Chain H, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin And
Neomycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome, With Neomycin Bound. The Entire
Crystal Structure Contains Two 70s Ribosomes.
pdb|2QAM|H Chain H, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Neomycin. This File
Contains The 50s Subunit Of The First 70s Ribosome,
With Neomycin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QAO|H Chain H, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Neomycin. This File
Contains The 50s Subunit Of The Second 70s Ribosome,
With Neomycin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBA|H Chain H, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin. This File
Contains The 50s Subunit Of The First 70s Ribosome,
With Gentamicin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBC|H Chain H, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin. This File
Contains The 50s Subunit Of The Second 70s Ribosome,
With Gentamicin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBE|H Chain H, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 50s Subunit Of The
First 70s Ribosome, With Rrf Bound. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described
In Remark 400.
pdb|2QBG|H Chain H, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 50s Subunit Of The
Second 70s Ribosome, With Rrf Bound. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described
In Remark 400.
pdb|2QBI|H Chain H, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And
Ribosome Recycling Factor (Rrf). This File Contains The
50s Subunit Of The First 70s Ribosome, With Gentamicin
And Rrf Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2QBK|H Chain H, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And
Ribosome Recycling Factor (Rrf). This File Contains The
50s Subunit Of The Second 70s Ribosome, With Gentamicin
And Rrf Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2Z4L|H Chain H, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
50s Subunit Of The First 70s Ribosome, With Paromomycin
And Rrf Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2Z4N|H Chain H, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
50s Subunit Of The Second 70s Ribosome, With
Paromomycin And Rrf Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2VHM|H Chain H, Structure Of Pdf Binding Helix In Complex With The
Ribosome (Part 1 Of 4)
pdb|2VHN|H Chain H, Structure Of Pdf Binding Helix In Complex With The
Ribosome. (Part 2 Of 4)
pdb|2RDO|H Chain H, 50s Subunit With Ef-G(Gdpnp) And Rrf Bound
pdb|3DF2|H Chain H, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Hygromycin B. This
File Contains The 50s Subunit Of The First 70s
Ribosome. The Entire Crystal Structure Contains Two 70s
Ribosomes.
pdb|3DF4|H Chain H, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Hygromycin B. This
File Contains The 50s Subunit Of The Second 70s
Ribosome. The Entire Crystal Structure Contains Two 70s
Ribosomes.
pdb|3BBX|H Chain H, The Hsp15 Protein Fitted Into The Low Resolution Cryo-Em
Map 50s.Nc-Trna.Hsp15 Complex
pdb|3FIK|H Chain H, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry
Consists Of The 50s Subunit.
pdb|3E1B|4 Chain 4, Structure Of The 50s Subunit Of E. Coli Ribosome In
Pre-Accommodation State
pdb|3E1D|4 Chain 4, Structure Of The 50s Subunit Of E. Coli Ribosome In
Post-Accommodation State
pdb|3I1N|H Chain H, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1P|H Chain H, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1R|H Chain H, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1T|H Chain H, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I20|H Chain H, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I22|H Chain H, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3KCR|H Chain H, Ribosome-Secy Complex. This Entry 3kcr Contains 50s
Ribosomal Subnit. The 30s Ribosomal Subunit Can Be
Found In Pdb Entry 3kc4
pdb|2WWQ|H Chain H, E.Coli 70s Ribosome Stalled During Translation Of Tnac
Leader Peptide. This File Contains The 50s, The P-Site
Trna And The Tnac Leader Peptide (Part 2 Of 2).
pdb|1VT2|H Chain H, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3ORB|H Chain H, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 50s Subunit Of The
First 70s Ribosome Bound To Cem-101.
pdb|3OFQ|H Chain H, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OFR|H Chain H, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 50s Subunit Of The
First 70s Ribosome With Erthromycin Bound.
pdb|3OFC|H Chain H, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 50s Subunit Of
The First 70s Ribosome With Chloramphenicol Bound.
pdb|3OFD|H Chain H, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 50s Subunit Of
The Second 70s Ribosome.
pdb|3OFZ|H Chain H, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 50s Subunit Of The
First 70s Ribosome Bound To Clindamycin.
pdb|3OG0|H Chain H, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OAS|H Chain H, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 50s Subunit Of
The Second 70s Ribosome.
pdb|3OAT|H Chain H, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 50s Subunit Of
The First 70s Ribosome With Telithromycin Bound.
pdb|3IZT|I Chain I, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Large Subunit Of A Ribosome Programmed With A
Near-Cognate Codon.
pdb|3IZU|I Chain I, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Large Subunit Of A Ribosome Programmed With A Cognate
Codon
pdb|3J01|H Chain H, Structure Of The Ribosome-Secye Complex In The Membrane
Environment
pdb|3R8S|H Chain H, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
pdb|3R8T|H Chain H, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
pdb|3J0T|I Chain I, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class2 Of The Six
Classes)
pdb|3J0W|I Chain I, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 4a Of The Six
Classes)
pdb|3J0Y|I Chain I, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 4b Of The Six
Classes)
pdb|3J11|I Chain I, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 3 Of The Six
Classes)
pdb|3J12|I Chain I, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 5 Of The Six
Classes)
pdb|3J14|I Chain I, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 6 Of The Six
Classes)
pdb|3J19|H Chain H, Structure Of The Bacterial Ribosome Complexed By
Tmrna-Smpb And Ef-G During Translocation And
Mld-Loading (50s Subunit)
pdb|4GAR|H Chain H, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
pdb|4GAU|H Chain H, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
Length = 149
Score = 35.4 bits (80), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 20/40 (50%), Positives = 23/40 (57%), Gaps = 4/40 (10%)
Query: 52 KVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKF 87
KV LG G+ V V GY RN L+P+ AVP NIE F
Sbjct: 8 KVANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIEFF 47
>pdb|3IY9|H Chain H, Leishmania Tarentolae Mitochondrial Large Ribosomal
Subunit Model
Length = 60
Score = 35.0 bits (79), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 20/40 (50%), Positives = 23/40 (57%), Gaps = 4/40 (10%)
Query: 52 KVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKF 87
KV LG G+ V V GY RN L+P+ AVP NIE F
Sbjct: 8 KVANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIEFF 47
>pdb|3BBO|J Chain J, Homology Model For The Spinach Chloroplast 50s Subunit
Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome
Length = 197
Score = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 11/51 (21%)
Query: 37 VRYRRWNLDLLTNQP-----------KVDKLGKAGETVKVAPGYFRNHLMP 76
V RR+N ++++ + V LGK G+ + V G+FRN L+P
Sbjct: 31 VSERRFNFEVVSQKKAKKLRKVILKEDVTDLGKQGQLLDVKAGFFRNFLLP 81
>pdb|3MWC|A Chain A, Crystal Structure Of Probable O-Succinylbenzoic Acid
Synthet Kosmotoga Olearia
Length = 400
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 23/39 (58%), Gaps = 2/39 (5%)
Query: 60 GETVKVAPGYFRNHLMPKLLAVP--NIEKFAHLIRKQRR 96
GET++ +NHL+P +L +IE+F HLI+ R
Sbjct: 63 GETLETTKVILKNHLLPMILGKEPLSIEEFNHLIKNGIR 101
>pdb|3U0C|A Chain A, Crystal Structure Of N-Terminal Region Of Type Iii
Secretion First Translocator Ipab (Residues 74-224)
pdb|3U0C|B Chain B, Crystal Structure Of N-Terminal Region Of Type Iii
Secretion First Translocator Ipab (Residues 74-224)
Length = 201
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 26/109 (23%), Positives = 56/109 (51%), Gaps = 17/109 (15%)
Query: 104 EKVKVIRKSEDNMSREFEKAARRLENARLVLRRFSN-IEKLRSRASKDDPIELRSP---- 158
+K+ + + ++R++EK +L+NA ++ N I ++++R S+ DP SP
Sbjct: 96 DKINTLLSETEGLTRDYEKQINKLKNADSKIKDLENKINQIQTRLSELDP---ESPEKKK 152
Query: 159 VTKEELVAEVARQLSIS----IEPENLHLPSPLSAFGEYEVPMRLPKAI 203
+++EE+ + + ++ IE + L + S L+ + M+L K I
Sbjct: 153 LSREEIQLTIKKDAAVKDRTLIEQKTLSIHSKLT-----DKSMQLEKEI 196
>pdb|2CXC|A Chain A, Crystal Structure Of Archaeal Transcription Termination
Factor Nusa
pdb|2CY1|A Chain A, Crystal Structure Of Ape1850
Length = 144
Score = 27.7 bits (60), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 21/36 (58%)
Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKL 143
VI+ SED+ K + ++ ARLVL + +EK+
Sbjct: 106 VIKVSEDDKGAAIGKGGKNVKRARLVLSKLFGVEKV 141
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.319 0.135 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,446,325
Number of Sequences: 62578
Number of extensions: 245169
Number of successful extensions: 597
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 577
Number of HSP's gapped (non-prelim): 17
length of query: 221
length of database: 14,973,337
effective HSP length: 95
effective length of query: 126
effective length of database: 9,028,427
effective search space: 1137581802
effective search space used: 1137581802
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)